SMTL ID : 6try.1

Crystal structure of human Aldehyde dehydrogenase 1A3 in complex with MF13 inhibitor compound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-tetramer

Ligands

4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Covalent)(Non-covalent)

NAD.1: 18 residues within 4Å: Chain A: I.177, T.178, P.179, W.180, K.204, P.205, A.206, E.207, G.237, P.238, G.241, A.242, F.255, G.257, S.258, V.261, V.265, K.360 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.178, A:E.207, A:S.258, A:K.360 NAD.4: 19 residues within 4Å: Chain B: I.177, T.178, P.179, W.180, K.204, A.206, E.207, G.237, P.238, G.241, A.242, F.255, G.257, S.258, V.261, V.265, K.360, Q.361, K.364 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:T.178, B:W.180, B:K.204, B:E.207, B:S.258, B:Q.361, B:K.364 pi-Cation interactions: B:K.364 NAD.6: 18 residues within 4Å: Chain C: I.177, T.178, P.179, W.180, K.204, P.205, A.206, E.207, G.237, P.238, G.241, A.242, F.255, G.257, S.258, V.261, V.265, K.360 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:T.178, C:E.207, C:S.258, C:K.360 NAD.9: 19 residues within 4Å: Chain D: I.177, T.178, P.179, W.180, K.204, A.206, E.207, G.237, P.238, G.241, A.242, F.255, G.257, S.258, V.261, V.265, K.360, Q.361, K.364 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:T.178, D:W.180, D:K.204, D:E.207, D:S.258, D:Q.361, D:K.364 pi-Cation interactions: D:K.364

4 x NW8: 8-(4-chlorophenyl)-2-phenyl-imidazo[1,2-a]pyridine(Non-covalent)

NW8.2: 14 residues within 4Å: Chain A: I.132, G.136, R.139, T.140, F.182, L.185, W.189, C.313, C.314, T.315, N.469, L.471, Y.472, A.473 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.132, A:I.132, A:R.139, A:L.185, A:N.469, A:L.471, A:A.473 Halogen bonds: A:C.314 NW8.5: 14 residues within 4Å: Chain B: I.132, G.136, T.140, F.182, L.185, M.186, W.189, F.308, C.313, C.314, T.315, N.469, L.471, A.473 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:I.132, B:F.182, B:F.182, B:L.185, B:F.308, B:T.315, B:N.469, B:L.471 NW8.7: 14 residues within 4Å: Chain C: I.132, G.136, R.139, T.140, F.182, L.185, W.189, C.313, C.314, T.315, N.469, L.471, Y.472, A.473 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:I.132, C:I.132, C:R.139, C:L.185, C:N.469, C:L.471, C:A.473 Halogen bonds: C:C.314 NW8.10: 14 residues within 4Å: Chain D: I.132, G.136, T.140, F.182, L.185, M.186, W.189, F.308, C.313, C.314, T.315, N.469, L.471, A.473 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:I.132, D:F.182, D:F.182, D:L.185, D:F.308, D:T.315, D:N.469, D:L.471

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: K.266, V.277, N.485 Chain B: K.266, R.276, V.277 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:K.266, A:K.266, A:V.277, A:V.277, A:N.485, B:K.266, B:V.277 GOL.8: 6 residues within 4Å: Chain C: K.266, V.277, N.485 Chain D: K.266, R.276, V.277 7 PLIP interactions: 2 interactions with chain D, 5 interactions with chain C Hydrogen bonds: D:K.266, D:V.277, C:K.266, C:K.266, C:V.277, C:V.277, C:N.485

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Quattrini, L. et al., Progress in the Field of Aldehyde Dehydrogenase Inhibitors: Novel Imidazo[1,2- a ]pyridines against the 1A Family. Acs Med.Chem.Lett. (2020)

Release Date

2021-01-13

Peptides

Aldehyde dehydrogenase family 1 member A3: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Aldehyde dehydrogenase family 1 member A3

Related Entries With Identical Sequence